GapFunction.h

/*  This file is part of Victor.

    Victor is free software: you can redistribute it and/or modify
    it under the terms of the GNU General Public License as published by
    the Free Software Foundation, either version 3 of the License, or
    (at your option) any later version.

    Victor is distributed in the hope that it will be useful,
    but WITHOUT ANY WARRANTY; without even the implied warranty of
    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
    GNU General Public License for more details.

    You should have received a copy of the GNU General Public License
    along with Victor.  If not, see <http://www.gnu.org/licenses/>.
 */


#ifndef __GapFunction_H__
#define __GapFunction_H__

#include <Debug.h>
#include <iostream>

namespace Victor { namespace Align2{

    class GapFunction {
    public:

        // CONSTRUCTORS:


        GapFunction() {
        }


        GapFunction(const GapFunction &orig) {
            copy(orig);
        }


        virtual ~GapFunction() {
        }


        // OPERATORS:

        GapFunction& operator =(const GapFunction &orig);


        // PREDICATES:

        virtual double getOpenPenalty(int p) = 0;

        virtual double getExtensionPenalty(int p) = 0;


        // MODIFIERS:

        virtual void copy(const GapFunction &orig);

        virtual GapFunction* newCopy() = 0;

        virtual void setOpenPenalty(double pen) = 0;

        virtual void setExtensionPenalty(double pen) = 0;


    protected:


    private:

    };

    // -----------------------------------------------------------------------------
    //                                 GapFunction
    // -----------------------------------------------------------------------------

    // OPERATORS:

    inline GapFunction&
            GapFunction::operator =(const GapFunction &orig) {
        if (&orig != this)
            copy(orig);
        POSTCOND((orig == *this), exception);
        return *this;
    }


    // MODIFIERS:

    inline void
    GapFunction::copy(const GapFunction &orig) {
    }

}} // namespace

#endif